Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 110 of 206
Found at i:32674816 original size:41 final size:44
Alignment explanation
Indices: 32674721--32675014 Score: 152
Period size: 44 Copynumber: 6.6 Consensus size: 44
32674711 TTTAATTTTT
32674721 TCCACTGCAACTTTAGGGA-ATAAGATTCTCTATCATCAATCTGC
1 TCCACTGCAACTTTAGGGAGATAAGA-TCTCTATCATCAATCTGC
*
32674765 TCCACTGCAACTTTAGGGAGATAAGA-CT-TGAT-AT-GATCTGC
1 TCCACTGCAACTTTAGGGAGATAAGATCTCT-ATCATCAATCTGC
* * * * * * * *
32674806 TCTACTGCAACTTCAGAGAGATAGGATCTGTAAGTTCTAGCTTTAATTTGT
1 TCCACTGCAACTTTAGGGAGATAAGATCTCT-A--TC-A---TCAATCTGC
* * * * * *
32674857 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTAC
1 TCCACTGCAACTTTAGGGAGATAAGA-TCTCTATCATCAATCTGC
* * * * * *
32674902 TCCACTACAACTTTTGGGAGATAAGA-CTTGTAACTTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAGATC-TCTATCATCAATCTGC
* * ** * * * *
32674946 TCCACTACAACTTCAGGGAGATAAGGAT-AGTAACTTAAACCTGC
1 TCCACTGCAACTTTAGGGAGATAA-GATCTCTATCATCAATCTGC
* *
32674990 TCCACTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTTAGGGAGATAAG
32675015 GTTTGATATG
Statistics
Matches: 197, Mismatches: 37, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
41 28 0.14
42 5 0.03
43 8 0.04
44 87 0.44
45 35 0.18
47 1 0.01
49 2 0.01
50 1 0.01
51 27 0.14
52 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGAGATAAGATCTCTATCATCAATCTGC
Found at i:32674954 original size:44 final size:44
Alignment explanation
Indices: 32674901--32675015 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
32674891 CTTCAGTCTA
** * *
32674901 CTCCACTACAACTTTTGGGAGATAA-GACTTGTAACTTCAACCTG
1 CTCCACTACAACTTCAGGGAGATAAGGA-TAGTAACTTAAACCTG
32674945 CTCCACTACAACTTCAGGGAGATAAGGATAGTAACTTAAACCTG
1 CTCCACTACAACTTCAGGGAGATAAGGATAGTAACTTAAACCTG
* *
32674989 CTCCACTGCAACTTCAGAGAGATAAGG
1 CTCCACTACAACTTCAGGGAGATAAGG
32675016 TTTGATATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 62 0.97
45 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGGATAGTAACTTAAACCTG
Found at i:32675928 original size:16 final size:14
Alignment explanation
Indices: 32675905--32675947 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
32675895 CCTCTCCTAT
32675905 TTCTTTTTCTTATTC
1 TTCTTTTTCTT-TTC
32675920 TTCCTTTTTCTTTTC
1 TT-CTTTTTCTTTTC
*
32675935 TTTTTTTTCTTTT
1 TTCTTTTTCTTTT
32675948 TTAAAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.38
15 7 0.27
16 9 0.35
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:32675948 original size:21 final size:21
Alignment explanation
Indices: 32675899--32675949 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 21
32675889 CATTGTCCTC
*
32675899 TCCTATTTCTTTTTCTTATTCT
1 TCCT-TTTTTTTTTCTTATTCT
* *
32675921 TCCTTTTTCTTTTCTT-TTTT
1 TCCTTTTTTTTTTCTTATTCT
*
32675941 TTCTTTTTT
1 TCCTTTTTT
32675950 AAAAGTGACG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (21 bp):
TCCTTTTTTTTTTCTTATTCT
Found at i:32681952 original size:20 final size:20
Alignment explanation
Indices: 32681927--32681966 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32681917 TTGTTATTAA
32681927 TATTTTGAACTTTTAAAATT
1 TATTTTGAACTTTTAAAATT
* *
32681947 TATTTTGAATTTTTATAATT
1 TATTTTGAACTTTTAAAATT
32681967 ACTAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTTGAACTTTTAAAATT
Found at i:32695879 original size:30 final size:30
Alignment explanation
Indices: 32695822--32695883 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
32695812 GCTTTTTGAA
* * *
32695822 AATATTTACAAAAAGTGGCATCTAATTTTT
1 AATATTTACAAAAAGTAGCACCAAATTTTT
32695852 AATATTTACAAAAAG-AGCAACCAAATTTTT
1 AATATTTACAAAAAGTAGC-ACCAAATTTTT
32695882 AA
1 AA
32695884 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGTAGCACCAAATTTTT
Found at i:32700420 original size:104 final size:103
Alignment explanation
Indices: 32700127--32700497 Score: 591
Period size: 105 Copynumber: 3.6 Consensus size: 103
32700117 TAGCCGTTAT
** *
32700127 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
32700192 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
32700230 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAATCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
32700295 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
32700334 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAACACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
32700399 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
32700439 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
32700498 TTTATATACA
Statistics
Matches: 250, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
103 77 0.31
104 85 0.34
105 87 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:32700859 original size:29 final size:29
Alignment explanation
Indices: 32700826--32700889 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
32700816 TAATCCACCA
32700826 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
32700855 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
32700885 CCCAA
1 CCCAA
32700890 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:32700863 original size:30 final size:30
Alignment explanation
Indices: 32700833--32700889 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32700823 CCACCCAACT
32700833 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
32700862 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
32700890 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:32703357 original size:33 final size:33
Alignment explanation
Indices: 32703310--32703377 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
32703300 CCTCTATTTT
32703310 GGTTCTGGTTACCCATGTAATACACAAATTCTA
1 GGTTCTGGTTACCCATGTAATACACAAATTCTA
*
32703343 GGTTTTGGTTACCCATGTAATACACAAATTCTA
1 GGTTCTGGTTACCCATGTAATACACAAATTCTA
32703376 GG
1 GG
32703378 CTCGATTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (33 bp):
GGTTCTGGTTACCCATGTAATACACAAATTCTA
Found at i:32707073 original size:20 final size:21
Alignment explanation
Indices: 32707033--32707091 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
32707023 CATTTGAAAC
*
32707033 TTTATTTGTTGATTTGGTTTA
1 TTTATTTTTTGATTTGGTTTA
**
32707054 -TTATTTTTTGATTTTTTTTA
1 TTTATTTTTTGATTTGGTTTA
*
32707074 TTTACTTATTTGATTTGG
1 TTTA-TTTTTTGATTTGG
32707092 GCCGAGCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 17 0.57
21 3 0.10
22 10 0.33
ACGTcount: A:0.15, C:0.02, G:0.14, T:0.69
Consensus pattern (21 bp):
TTTATTTTTTGATTTGGTTTA
Found at i:32707455 original size:44 final size:44
Alignment explanation
Indices: 32707388--32707505 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
32707378 AATGCGATCT
* * * *
32707388 ACTCCGCTGTAA-CTTCAGAGAGATAAGATT-CTTTGTTTTAATCC
1 ACTCCGCTGTAATC-TCAGGGAGATAAGATTAC-TAGCTTCAATCC
* * * *
32707432 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 ACTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCC
* *
32707476 ACGCCGCTGTAATCTCAAGGAGATAAGATT
1 ACTCCGCTGTAATCTCAGGGAGATAAGATT
32707506 TCTGGCTTGA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCC
Found at i:32722500 original size:18 final size:19
Alignment explanation
Indices: 32722474--32722510 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
32722464 AATTTTAGAA
32722474 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
32722492 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
32722511 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:32724617 original size:45 final size:44
Alignment explanation
Indices: 32724538--32724625 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
32724528 TATACGCCTA
* *
32724538 AAATGTGTAAGACCATAGCTGAAAGATGTCATGGCATCATGATAG
1 AAATGAGTAAGACCATAGCTGAAAGATCTCATGGCATCA-GATAG
32724583 AAATGAGTAAGACCATAGCT-AGAAGA-CTCTATGGCATCAGATA
1 AAATGAGTAAGACCATAGCTGA-AAGATCTC-ATGGCATCAGATA
32724626 AATGTGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 7 0.18
45 32 0.82
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (44 bp):
AAATGAGTAAGACCATAGCTGAAAGATCTCATGGCATCAGATAG
Found at i:32725902 original size:71 final size:70
Alignment explanation
Indices: 32725825--32726317 Score: 157
Period size: 71 Copynumber: 7.1 Consensus size: 70
32725815 TAATTTCGGT
32725825 CAAAATATAAAAGACATGGAAGTTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGGAA-TTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGA
32725890 TTCATA
65 TTCATA
* * * * * * ** *
32725896 CAAAATAT----TA-ATTGTA-T-ATATT-TTATCAAATTTATTAATATAAAAAATTATATTAA-
1 CAAAATATAAAAGACATGGAATTAATATTCTTTTCGAA---A-GAATATAATTAA-TATATGAAT
* *
32725952 TTAATTTCGGT-
61 TTGA-TTC-ATA
* *
32725963 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATG-GAATTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGA
32726028 TTCATA
65 TTCATA
* * * * ** *** * *
32726034 TAAAATAT----TA-ATTGTA-T-ATATT-TTACCGAATTTATTG-ATATACGCAATTTTATTAA
1 CAAAATATAAAAGACATGGAATTAATATTCTTTTCGAA---A--GAATATAATTAA-TATATGAA
*
32726090 -TTAATTTCAGT-
60 TTTGA-TTCA-TA
* * *
32726101 CAAAATATAAAAGATATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTAA
1 CAAAATATAAAAGACATGG-AATTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGA
32726166 TTCATA
65 TTCATA
* * * *** * * * * *
32726172 TAAAATATTAATTATATATATTTTACTAA-ATT-TATT--AATGTAA-ATAGTT-ATAATAATTA
1 CAAAATA-TAA--A-AGACATGGAATTAATATTCTTTTCGAAAG-AATATAATTAAT-AT-ATGA
*
32726231 ATTT--TT-GT-
59 ATTTGATTCATA
* *
32726239 CAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATAGGAATTTGA
1 CAAAATATAAAAGACATGG-AATTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGA
32726304 TTCATA
65 TTCATA
32726310 CAAAATAT
1 CAAAATAT
32726318 TAATTGTATA
Statistics
Matches: 292, Mismatches: 74, Indels: 112
0.61 0.15 0.23
Matches are distributed among these distances:
62 11 0.04
63 14 0.05
64 7 0.02
65 6 0.02
66 34 0.12
67 52 0.18
68 13 0.04
69 8 0.03
70 13 0.04
71 61 0.21
72 34 0.12
73 7 0.02
74 7 0.02
75 15 0.05
76 10 0.03
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (70 bp):
CAAAATATAAAAGACATGGAATTAATATTCTTTTCGAAAGAATATAATTAATATATGAATTTGAT
TCATA
Found at i:32725977 original size:138 final size:137
Alignment explanation
Indices: 32725729--32726426 Score: 1022
Period size: 138 Copynumber: 5.1 Consensus size: 137
32725719 GAGAACATAT
* * *
32725729 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACCAATTTTTTT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CAAATTTATT
* *
32725794 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAGTTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
32725859 TCGAAAGA
130 TGGAAAGA
32725867 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CAAATTTATT
* * * *
32725932 AATATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
32725997 TGGAAAGA
130 TGGAAAGA
* *
32726005 ATATAATTAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CAAATTTATT
* ** * * *
32726070 GATATACGCAATTTTATTAATTAATTTCAGTCAAAATATAAAAGATATGGAAATTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
32726135 TGGAAAGA
130 TGGAAAGA
* * *
32726143 ATATAATTAATATATGAATTTAATTCATATAAAATATTAATTATATATATTTTACTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC-AAATTTATT
* * * **
32726208 AATGTAAATAGTTATAATAATTAATTTTTGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
32726273 TGGAAAGA
130 TGGAAAGA
* *
32726281 ATATAATTAATATAGGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC-AAATTTATT
* * * *
32726346 AATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAGATATGAAAATT-AT-TTGTTT
65 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
32726409 TCCCGAAAGA
130 T--GGAAAGA
32726419 ATATAATT
1 ATATAATT
32726427 CATTTTTCTA
Statistics
Matches: 508, Mismatches: 49, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
136 6 0.01
137 3 0.01
138 499 0.98
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAATTTATTA
ATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
GGAAAGA
Found at i:32726161 original size:17 final size:17
Alignment explanation
Indices: 32726141--32726192 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
32726131 CTTTTGGAAA
32726141 GAATATAATTAATATAT
1 GAATATAATTAATATAT
* *
32726158 GAATTTAATTCATATA-
1 GAATATAATTAATATAT
*
32726174 AAATATTAATTATATATAT
1 GAATA-TAATTA-ATATAT
32726193 TTTACTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 19 0.70
18 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
GAATATAATTAATATAT
Found at i:32733045 original size:23 final size:23
Alignment explanation
Indices: 32733019--32733065 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
32733009 TATTTCGTCA
32733019 TAGATTCTATTATGGTAAAGTTG
1 TAGATTCTATTATGGTAAAGTTG
32733042 TAGATTCTATTATGGTAAAGTTG
1 TAGATTCTATTATGGTAAAGTTG
32733065 T
1 T
32733066 TACAACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
TAGATTCTATTATGGTAAAGTTG
Found at i:32733135 original size:13 final size:13
Alignment explanation
Indices: 32733117--32733158 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
32733107 TAATTAAGAG
32733117 TTAAATTAATTTA
1 TTAAATTAATTTA
32733130 TTAAATTAATTTA
1 TTAAATTAATTTA
*
32733143 TTAAATAATATTTA
1 TTAAATTA-ATTTA
32733157 TT
1 TT
32733159 TTGAGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATTAATTTA
Found at i:32737580 original size:37 final size:37
Alignment explanation
Indices: 32737537--32737650 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
32737527 CCACTGGATA
32737537 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
*
32737574 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
* * *
32737611 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTGGATC
1 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
32737648 ATG
1 ATG
32737651 ACAGGTAGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.27
Consensus pattern (37 bp):
ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATC
Found at i:32737683 original size:74 final size:74
Alignment explanation
Indices: 32737537--32737688 Score: 171
Period size: 74 Copynumber: 2.1 Consensus size: 74
32737527 CCACTGGATA
* * * * * *** *
32737537 ATGCCATATAGTCGAGTCTGGCGGACCTCCTTAGATCATGCCATATAGTCGAGTCTGGTGGACCT
1 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATAGTCGAATCTGGCAAACCA
*
32737602 CCTTAGATC
66 CCCTAGATC
* * *
32737611 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTGGATCATGACAGGTAGGT-GAATCTGGCAAATC
1 ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATA-GTCGAATCTGGCAAACC
32737675 ACCCTAGATC
65 ACCCTAGATC
32737685 ATGC
1 ATGC
32737689 AATGGCCATG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 62 0.97
75 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (74 bp):
ATGCCATATAGGCGAGTCTCGCGGACCTCCTTAGATCATGACAGATAGTCGAATCTGGCAAACCA
CCCTAGATC
Found at i:32745179 original size:23 final size:22
Alignment explanation
Indices: 32745136--32745179 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
32745126 TTCTAAGTCG
32745136 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
32745159 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
32745180 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:32745289 original size:45 final size:45
Alignment explanation
Indices: 32745225--32745317 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
32745215 ACAGATACTT
* *
32745225 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
* *
32745270 GGTGGAATCAGCAGATAGCAACCACCTTACTAATCAATGATGTTC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
32745315 GGT
1 GGT
32745318 TCACATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:32758370 original size:50 final size:50
Alignment explanation
Indices: 32758243--32758687 Score: 285
Period size: 49 Copynumber: 8.7 Consensus size: 50
32758233 ATAATAACAG
* * * * *
32758243 GCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA-TGTTTCCTGT--ACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCGA-T
* * * * *
32758292 GCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGAT
* * * * *
32758342 GCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTTATCTCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGAT
* * * * *
32758391 GCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCACAACCTTAAT-AAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TCTC-A---T-ATCGAT
* * * *
32758447 GCCAATGCCATGTCCCAGACATGGCCTTACATGGGA-TGTTTCCTGT--ACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCGA-T
* * * * * * *
32758496 GCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGAT
* * ** * * * *
32758546 GCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCTTATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGAT
* * * *
32758596 GCCAATGTCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACCTCAATAAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GAT
*
32758652 GCCAATGCCATGTCCAAGACATGGTCTTACATGGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
32758688 TCTTATTCCC
Statistics
Matches: 303, Mismatches: 72, Indels: 35
0.74 0.18 0.09
Matches are distributed among these distances:
48 1 0.00
49 114 0.38
50 109 0.36
51 1 0.00
52 2 0.01
53 3 0.01
54 3 0.01
56 69 0.23
57 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGAT
Found at i:32770841 original size:44 final size:44
Alignment explanation
Indices: 32770791--32771148 Score: 348
Period size: 44 Copynumber: 8.0 Consensus size: 44
32770781 CGGTTTTAGT
*
32770791 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
*
32770835 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
*
32770879 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
** ** *
32770923 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTTCA-A-C
* * * * * * * *
32770970 TAATTCGACCTACTGCAATTTCAGAGG-TATAAGA-TT-CATCGTTTTAAT
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGACTTGTATC--TTCAAC
* * *
32771018 CTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* * **
32771062 CTGCTCCATTGCAACTTTAAAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* *
32771106 CTGCTCCACTGCAACTTCAGTGAGATAAGACTTGTAGCTTCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA
32771149 ATTGTTTTAC
Statistics
Matches: 261, Mismatches: 39, Indels: 28
0.80 0.12 0.09
Matches are distributed among these distances:
43 2 0.01
44 214 0.82
45 9 0.03
46 5 0.02
47 1 0.00
48 2 0.01
49 3 0.01
50 6 0.02
51 17 0.07
52 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:32771307 original size:129 final size:129
Alignment explanation
Indices: 32771174--32771532 Score: 495
Period size: 129 Copynumber: 2.8 Consensus size: 129
32771164 CTTTAAGAAA
* * * *
32771174 ATAAAATCTGG-TGCGGTTTGCTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCG
1 ATAAAA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCG
* * * *
32771238 CTTCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCACCGCTGCAACTTCAGGGAG
65 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAG
* **
32771303 ATAAAACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCCGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
** * *
32771368 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCATTGCAACTTCAGGGAG
66 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAG
* * * **
32771432 ATAAGACTGGATGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
* * *
32771497 TCCACTTCAACTTTAGGGAGATAGGATTGGCTTCTT
66 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT
32771533 TGATCTGCTT
Statistics
Matches: 205, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 4 0.02
129 201 0.98
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAG
Found at i:32771415 original size:44 final size:44
Alignment explanation
Indices: 32771241--32771437 Score: 145
Period size: 44 Copynumber: 4.5 Consensus size: 44
32771231 TAATCCGCTT
* * * * *
32771241 CACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCAC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
* * * * * *
32771285 CGCTGCAACTTCAGGGAGATAAAACTGG---ATGCGATCTGA-TC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCT-ACTC
* * * * **
32771326 TACTGCAACTTCAGAGAGATAAGATCT-ATTT-TTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGAT-TGGTTTCTTCT-ATCTACTC
* *
32771370 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
*
32771414 CATTGCAACTTCAGGGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
32771438 CTGGATGCGA
Statistics
Matches: 113, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
41 27 0.24
42 1 0.01
43 2 0.02
44 80 0.71
45 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
Found at i:32771602 original size:45 final size:45
Alignment explanation
Indices: 32771536--32771788 Score: 314
Period size: 45 Copynumber: 5.7 Consensus size: 45
32771526 GCTTCTTTGA
* *
32771536 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* ** * * *
32771581 TATGCTTCATTGTCAGTACAGGAAGGCAAG-GCCGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* *
32771624 ATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGGTATATTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * * *
32771670 TCTGCTCCGCTGTCAGTATAGGAAGGTAAG-GCTGGTATCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* *
32771714 TCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
*
32771759 TCTGCTCCGCTGTCAGTACAGGAAGGCAAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG
32771789 GCTGGTGTCT
Statistics
Matches: 174, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 72 0.41
45 100 0.57
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
Found at i:32771685 original size:89 final size:89
Alignment explanation
Indices: 32771529--32771798 Score: 405
Period size: 89 Copynumber: 3.0 Consensus size: 89
32771519 AGGATTGGCT
* * * * **
32771529 TCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCATTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
32771594 CAGTACAGGAAGGCAAGGCCGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* * *
32771618 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGGTATATTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* * *
32771683 CAGTATAGGAAGGTAAGGCTGGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
32771707 TCTTCAATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
32771772 CAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
32771796 TCT
1 TCT
32771799 ATTTTTATGC
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 160 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:32772670 original size:19 final size:20
Alignment explanation
Indices: 32772634--32772672 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
32772624 TAATTTAGCC
* *
32772634 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTGTTAATTTAAT
32772654 ATTTTT-TTGTTAATTTAAT
1 ATTTTTATTGTTAATTTAAT
32772673 TTTATATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTTATTGTTAATTTAAT
Found at i:32776726 original size:27 final size:27
Alignment explanation
Indices: 32776695--32776786 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
32776685 CATCCTATTA
* *
32776695 GCCTTTATGGCATACTTTGAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
***
32776722 GCCTTTGTGGCGTACTCAAAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
*
32776749 GCGTTT-TAGGCGTACTTTGAAAGGAAT
1 GCCTTTGT-GGCGTACTTTGAAAGGAAT
32776776 GCCTTTGTGGC
1 GCCTTTGTGGC
32776787 TTATCCTGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTTTGAAAGGAAT
Found at i:32780754 original size:18 final size:18
Alignment explanation
Indices: 32780731--32780770 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
32780721 AAATTAATGC
* *
32780731 AAAAAATATTAAATTTTA
1 AAAAAATATGAAAATTTA
32780749 AAAAAATATGAAAATTTA
1 AAAAAATATGAAAATTTA
32780767 AAAA
1 AAAA
32780771 TACTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAAATATGAAAATTTA
Found at i:32780779 original size:17 final size:16
Alignment explanation
Indices: 32780732--32780786 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
32780722 AATTAATGCA
*
32780732 AAAAATATTAAATTTT
1 AAAAATATTAAAATTT
*
32780748 AAAAAAATATGAAAATTT
1 --AAAAATATTAAAATTT
*
32780766 AAAAATACTTAAAAGTT
1 AAAAATA-TTAAAATTT
32780783 AAAA
1 AAAA
32780787 GAAAAACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 7 0.22
17 11 0.34
18 14 0.44
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
AAAAATATTAAAATTT
Found at i:32781972 original size:29 final size:30
Alignment explanation
Indices: 32781917--32782000 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
32781907 AAGGTTTAGC
* *
32781917 CTTATAAAATAATCAAATGAAGATTAA-AT
1 CTTATAAAATAATTAAATAAAGATTAATAT
*
32781946 CTTATAAAATAATTAAATAATAG-TTAATTT
1 CTTATAAAATAATTAAATAA-AGATTAATAT
*
32781976 CTTTTAAAAT-ATTAAAATAAAGATT
1 CTTATAAAATAATT-AAATAAAGATT
32782001 TCTCAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 27 0.57
30 20 0.43
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (30 bp):
CTTATAAAATAATTAAATAAAGATTAATAT
Found at i:32785149 original size:28 final size:28
Alignment explanation
Indices: 32785109--32785165 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
32785099 ACTAATCATC
*
32785109 ACTCTTAATTTTCTCTAATTATAGTTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
32785137 ACTCTTAATTTTCTCTAATTATAGCTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
32785165 A
1 A
32785166 AAAATGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
ACTCTTAATTTTCTCTAATTATAGCTGG
Found at i:32787471 original size:24 final size:24
Alignment explanation
Indices: 32787444--32787490 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32787434 AAATCAATTA
*
32787444 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
32787468 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
32787491 AATAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:32789391 original size:44 final size:44
Alignment explanation
Indices: 32789328--32789598 Score: 235
Period size: 44 Copynumber: 6.0 Consensus size: 44
32789318 CAGTTTTAGT
*
32789328 CTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* *
32789372 CTGCTCCACAGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * * * * *
32789416 CTGCTTCACTGTAACTTTAGGGAGAAAATG-TTTGATATGATAAGATCTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GACTTG-TAT-CT----TC-AAC
* * * * * *
32789467 TTGAC-CTACTGCAACTTCAGGGAGATAGGA-TAAGTAGCTTCAAT
1 CTG-CTCCACTGCAACTTCAGGGAGATAAGACT-TGTATCTTCAAC
* *
32789511 CTGCTCCATTGCAACTTCAGAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* *
32789555 CTGCTCCACTGCAACTTCAGTGAGATAAGACTTGTAGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
32789599 TTGTTTTACT
Statistics
Matches: 181, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 141 0.78
45 8 0.04
46 1 0.01
49 1 0.01
50 6 0.03
51 22 0.12
52 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:32789829 original size:44 final size:44
Alignment explanation
Indices: 32789474--32789923 Score: 179
Period size: 44 Copynumber: 10.5 Consensus size: 44
32789464 AATTTGACCT
* * * * *
32789474 ACTGCAACTTCAGGGAGATAGGAT-AAGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTA-TGGTTTCAATCTGCTCC
* *
32789518 ATTGCAACTTCAGAGAGATAAGA--T-TGGTATCTTCAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGG--T-TTCAATCTGCTCC
* * * **
32789562 ACTGCAACTTCAGTGAGATAAGA-CT-TGTAGCTTCAA-CTTGTTTT
1 ACTGCAACTTCAGAGAGATAAGATCTATG--GTTTCAATC-TGCTCC
* * * * * * ** *
32789606 ACTGTATCTTTA-AGAAAATAAAATC--TGG-TGCGGTCTGCTCT
1 ACTGCAACTTCAGAG-AGATAAGATCTATGGTTTCAATCTGCTCC
* * ** * * *
32789647 ACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCGCTTC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
*
32789691 ACTGCAACTTCAG-GAAGATAGGA--T-TGGTTTCTTCAATCTGCTCC
1 ACTGCAACTTCAGAG-AGATAAGATCTATGG--T-TTCAATCTGCTCC
* * * * * * * *
32789735 GCTACAACTTCAGGGAGATAAGA-C--TGGATGCGATCTTCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
** *
32789776 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* * * * * *
32789820 ACTGCAACTTCAGGGA-ATAA-AAC--TGGATGCGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* *
32789860 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* * *
32789904 ACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATA
32789924 GAATTGGCTT
Statistics
Matches: 295, Mismatches: 84, Indels: 54
0.68 0.19 0.12
Matches are distributed among these distances:
40 25 0.08
41 60 0.20
42 9 0.03
43 9 0.03
44 186 0.63
45 5 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
Found at i:32789864 original size:40 final size:41
Alignment explanation
Indices: 32789739--32789880 Score: 142
Period size: 40 Copynumber: 3.4 Consensus size: 41
32789729 TGCTCCGCTA
* *
32789739 CAACTTCAGGGAGATAAGACTGGATGCGATCTTCTCTACTG
1 CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
* * *** *** *
32789780 CAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAA-AAC--TGGATGCGATCTGCTCTACTG
32789824 CAACTTCAGGGA-ATAAAACTGGATGCGATCTGCTCTACTG
1 CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
*
32789864 CAACTTCAGAGAGATAA
1 CAACTTCAGGGAGATAA
32789881 GATCTATGGT
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
40 25 0.33
41 20 0.26
42 3 0.04
43 4 0.05
44 24 0.32
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
Found at i:32789873 original size:84 final size:85
Alignment explanation
Indices: 32789691--32789923 Score: 319
Period size: 84 Copynumber: 2.8 Consensus size: 85
32789681 AATCCGCTTC
* * * * *
32789691 ACTGCAACTTCAG-GAAGATAGGAT-TGGTTTCTTCAATCTGCTCCGCTACAACTTCAGGGAGAT
1 ACTGCAACTTCAGAG-AGATAAGATCT-ATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGAT
* *
32789754 AAGACTGGATGCGATCTTCTCT
64 AAAACTGGATGCGATCTGCTCT
*
32789776 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTGCAACTTCAGGGA-ATAA
1 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
32789840 AACTGGATGCGATCTGCTCT
66 AACTGGATGCGATCTGCTCT
** * *
32789860 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATA
32789924 GAATTGGCTT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 77 0.58
85 53 0.40
86 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
AACTGGATGCGATCTGCTCT
Found at i:32790089 original size:89 final size:89
Alignment explanation
Indices: 32789933--32790339 Score: 607
Period size: 89 Copynumber: 4.6 Consensus size: 89
32789923 AGAATTGGCT
* * * * *
32789933 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
32789998 CAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
32790022 TCTTCGATCTGCTTCGCTGTCAGTATAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
32790087 CAGTACAAGAAGGCAAGGCTGGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
*
32790111 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* * *
32790176 TAATACAGGAAGGCAAGGCTTGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* ** * * * *
32790200 TCTTCGATCTGCTTCGCTATTTGTACAGGAAAGCAAGATCTGCTATTTTCAGTCTGCTTCGCTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
32790265 TAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
32790289 TCTTTGATCTACTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
32790340 CTGATCTATT
Statistics
Matches: 284, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 284 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:32790641 original size:24 final size:24
Alignment explanation
Indices: 32790614--32790669 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
32790604 GATTGCCCCT
32790614 ACTGTAATCTTCAAAGTTCAATCC
1 ACTGTAATCTTCAAAGTTCAATCC
* *
32790638 ACTGTAATCTTCAAGGTTCAGTCC
1 ACTGTAATCTTCAAAGTTCAATCC
32790662 ACTGTAAT
1 ACTGTAAT
32790670 TTTGGTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTCAATCC
Found at i:32801350 original size:48 final size:47
Alignment explanation
Indices: 32801287--32801481 Score: 196
Period size: 48 Copynumber: 4.1 Consensus size: 47
32801277 CTACTATGCG
* * *
32801287 CACCGATATTATGTTATGACACAAGGGTGGCACAGACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCAC-GACTATGTGTAGGC
* * * *
32801335 CACCGATATTCTGTTATAATACAAGGGTGGCACGGACTGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCAC-GACTATGTGTAGGC
* * * *
32801383 CACCAATAACCTGTTAAGATACAAGGGTGGCACGAACTATGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACG-ACTATGTGTAGGC
* * *
32801431 CACCGAGAATCTGTTATTACACAAAGGTGGTGCA-GAC-AGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGT-G-GCACGACTA-TGTGTAGGC
32801479 CAC
1 CAC
32801482 TGAGAAATCT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
47 2 0.02
48 117 0.94
49 2 0.02
50 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
CACCGATAATCTGTTATGACACAAGGGTGGCACGACTATGTGTAGGC
Found at i:32801473 original size:96 final size:96
Alignment explanation
Indices: 32801298--32801481 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
32801288 ACCGATATTA
* * * * *
32801298 TGTTATGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGATATTCTGTTATAATACAAGGGT
1 TGTTAAGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGGT
* *
32801363 GGCACGGACTGTGTGTAGGCCACCAATAACC
66 GGCACAGACAGTGTGTAGGCCACCAATAACC
* * *
32801394 TGTTAAGATACAAGGGTGGCAC-GAACTATGTGTAGGCCACCGAGAATCTGTTATTACACAAAGG
1 TGTTAAGACACAAGGGTGGCACAG-ACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGG
**
32801458 TGGTGCAGACAGTGTGTAGGCCAC
65 TGGCACAGACAGTGTGTAGGCCAC
32801482 TGAGAAATCT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
TGTTAAGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGGT
GGCACAGACAGTGTGTAGGCCACCAATAACC
Found at i:32806722 original size:48 final size:48
Alignment explanation
Indices: 32806668--32806851 Score: 242
Period size: 48 Copynumber: 3.8 Consensus size: 48
32806658 GCAGCGATAT
* *
32806668 TCTGTTATGACATAAGGGTGGCACGGACTGTGTGCAGTCCACCAATAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
*
32806716 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
* * * * * * * *
32806764 CCTGTTAAGATACAAGGGTGGTACGAACTATGTGCAGGCCACCGAGAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
* * *
32806812 TCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGGCC
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
32806852 GCCGAGAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
Found at i:32812339 original size:22 final size:22
Alignment explanation
Indices: 32812265--32812345 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 22
32812255 AAATAAAATG
* *
32812265 GTTTTCCCTGTAAAAAAC-CAA
1 GTTTTTCCTGTAAAAATCTCAA
32812286 GTTTTTCCTGTAAAAATCT-AA
1 GTTTTTCCTGTAAAAATCTCAA
32812307 GTTATTTCCTGT-AAAATCTCAA
1 GTT-TTTCCTGTAAAAATCTCAA
* *
32812329 CTTTTTCCCTGAAAAAA
1 GTTTTT-CCTGTAAAAA
32812346 ATAAAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 31 0.61
22 16 0.31
23 4 0.08
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (22 bp):
GTTTTTCCTGTAAAAATCTCAA
Found at i:32818014 original size:31 final size:32
Alignment explanation
Indices: 32817955--32818019 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
32817945 GGCAAATTAC
32817955 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
32817987 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
32818018 AA
1 AA
32818020 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:32821456 original size:20 final size:21
Alignment explanation
Indices: 32821425--32821463 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
32821415 AAGTAAGGTT
*
32821425 AAATATCAATTTAACCACTAA
1 AAATATCAATTTAAACACTAA
32821446 AAATA-CAATTTAAACACT
1 AAATATCAATTTAAACACT
32821464 CAAGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATCAATTTAAACACTAA
Found at i:32823691 original size:27 final size:27
Alignment explanation
Indices: 32823653--32823765 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
32823643 GGTCACCGAG
* *
32823653 ACCCCTGATTTGTGAAATTA-TCGAAAT
1 ACCCCCGATTTGTAAAATTACT-GAAAT
32823680 ACCCCCGATTTGTAAAATTACTGAAAT
1 ACCCCCGATTTGTAAAATTACTGAAAT
* * *
32823707 A-CCTCTAGTTTGTAAAATTA-TCGAAAC
1 ACCCCCGA-TTTGTAAAATTACT-GAAAT
* * *
32823734 ACCCTCAATTTGTGAAATTACTGAAAT
1 ACCCCCGATTTGTAAAATTACTGAAAT
32823761 ACCCC
1 ACCCC
32823766 TTTAGGGTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.07
27 60 0.83
28 7 0.10
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (27 bp):
ACCCCCGATTTGTAAAATTACTGAAAT
Found at i:32823745 original size:54 final size:54
Alignment explanation
Indices: 32823661--32823763 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
32823651 AGACCCCTGA
* * *
32823661 TTTGTGAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATACCTCTAG
1 TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
* *
32823715 TTTGTAAAATTATCGAAACACCCTCAATTTGTGAAATTACTGAAATACC
1 TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACC
32823764 CCTTTAGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
Found at i:32823780 original size:27 final size:27
Alignment explanation
Indices: 32823750--32823802 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
32823740 AATTTGTGAA
*
32823750 ATTACTGAAATACCCCTT-TAGGGTAAG
1 ATTACCGAAATA-CCCTTATAGGGTAAG
32823777 ATTACCGAAATACCCTTATAGGGTAA
1 ATTACCGAAATACCCTTATAGGGTAA
32823803 AATGACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
ATTACCGAAATACCCTTATAGGGTAAG
Found at i:32823786 original size:54 final size:53
Alignment explanation
Indices: 32823667--32823792 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 53
32823657 CTGATTTGTG
* * *
32823667 AAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATACCTCTAGTTTGTA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATACCTCTAG-TGGTA
* * *
32823721 AAATTATCGAAACACCCTCAATTTGTGAAATTACTGAAATACCCCTTTAG-GGTA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATA--CCTCTAGTGGTA
* *
32823775 AGATTACCGAAATACCCT
1 AAATTATCGAAATACCCT
32823793 TATAGGGTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
54 55 0.90
56 6 0.10
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (53 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATACCTCTAGTGGTA
Found at i:32824226 original size:28 final size:28
Alignment explanation
Indices: 32824194--32824266 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
32824184 CTACATACTG
*
32824194 TTTCTATATTGGGCTAAGGCCCACCTTA
1 TTTCTGTATTGGGCTAAGGCCCACCTTA
* *
32824222 TTTCTGTATTGGGCTAAGGCCCATCTTG
1 TTTCTGTATTGGGCTAAGGCCCACCTTA
*
32824250 TTTCTGTATCGGGCTAA
1 TTTCTGTATTGGGCTAA
32824267 AGCCTACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (28 bp):
TTTCTGTATTGGGCTAAGGCCCACCTTA
Found at i:32824278 original size:28 final size:27
Alignment explanation
Indices: 32824192--32824283 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 27
32824182 TACTACATAC
*
32824192 TGTTTCTATATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAGGCCCA-CT
*
32824220 TATTTCTGTATTGGGCTAAGGCCCATCT
1 TGTTTCTGTATTGGGCTAAGGCCCA-CT
* * *
32824248 TGTTTCTGTATCGGGCTAAAGCCTACAT
1 TGTTTCTGTATTGGGCTAAGGCCCAC-T
32824276 TG-TTCTGT
1 TGTTTCTGT
32824284 TCTGTTACTG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
27 7 0.12
28 49 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
TGTTTCTGTATTGGGCTAAGGCCCACT
Found at i:32838745 original size:19 final size:20
Alignment explanation
Indices: 32838703--32838745 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
32838693 TCATGCTTTC
*
32838703 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
32838723 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
32838741 TATTC
1 TATTC
32838746 CAGTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:32838987 original size:51 final size:50
Alignment explanation
Indices: 32838912--32839106 Score: 196
Period size: 51 Copynumber: 3.9 Consensus size: 50
32838902 TCAATGGTAC
* * * *
32838912 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGA-CCATTTCCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCA--TCCAT
* * * ** * *
32838963 CCGATACACGTAATAGCCTGCACATATTACTACACACGTGATCGAAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCCATCCAT
** * * *
32839014 CCGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCCAT-CATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATCCA-T
32839064 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
32839107 ATAACTTTCA
Statistics
Matches: 113, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 41 0.36
51 70 0.62
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATCCAT
Found at i:32839103 original size:101 final size:101
Alignment explanation
Indices: 32838920--32839104 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
32838910 ACCCGGTTCA
*
32838920 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTCCATCCGATACACGTAATAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TTCCATCCGATACACGTAATAGCCTGCA
*
32838985 CATATTACTACACACGTGATCGAAGCTATCCGGTATG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
* * *
32839022 CATAGTAGCCTGCACATAGTACTACACATGCGACCCA-T-CATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGA-CCATTCCA-TCCGATACACGTAATAGCCTGC
32839085 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
32839105 CCATAACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 40 0.53
102 31 0.41
103 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATTCCATCCGATACACGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:32839127 original size:101 final size:101
Alignment explanation
Indices: 32838919--32839138 Score: 259
Period size: 101 Copynumber: 2.2 Consensus size: 101
32838909 TACCCGGTTC
*
32838919 ACATAGTAGCCTACACATAGTACTACACATGTGACCATTTCCATCCGATACACGTAATAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCA-TTCCATCCGATACACGTAATAGCCTGC
* * *
32838984 ACATATTACTACACACGTGATCGAAGCTATCCGGTAT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGTAT
* * * *
32839021 GCATAGTAGCCTGCACATAGTACTACACATGCGACCCA-T-CATTCCGGTACACGTAGTAGCCTG
1 ACATAGTAGCCTACACATAGTACTACACATGCGA-CCATTCCA-TCCGATACACGTAATAGCCTG
* * *
32839084 CACATAGTACTACACACGTGA-CCATAACTTTCAC-TTTT
64 CACATAGTACTACACACGTGATCCA-AACTATC-CGGTAT
*
32839122 ACATAGTGGCCTACACA
1 ACATAGTAGCCTACACA
32839139 CAGTCCGTGC
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
100 4 0.04
101 61 0.61
102 32 0.32
103 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTACACATAGTACTACACATGCGACCATTCCATCCGATACACGTAATAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGTAT
Found at i:32841082 original size:21 final size:21
Alignment explanation
Indices: 32841058--32841097 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32841048 TTAGAAATGG
*
32841058 ATATTTTTCTGATTTTTTTAT
1 ATATTTTTCTAATTTTTTTAT
32841079 ATATTTTTCTAATTTTTTT
1 ATATTTTTCTAATTTTTTT
32841098 TATCTCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
ATATTTTTCTAATTTTTTTAT
Found at i:32854585 original size:27 final size:28
Alignment explanation
Indices: 32854555--32854637 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 28
32854545 ACTAATGCGA
* * *
32854555 TCCATTTAGGGTTTGCCAGAAAGGC-AT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
32854582 TCCATTCAGAGTTTGCCACAAAGGCTAT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
* * *
32854610 T-CTTTCAGAGTTCG-CACAAAAGCTAT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
32854636 TC
1 TC
32854638 TTAGCTGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.25
27 33 0.69
28 3 0.06
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (28 bp):
TCCATTCAGAGTTTGCCACAAAGGCTAT
Found at i:32854634 original size:26 final size:27
Alignment explanation
Indices: 32854586--32854639 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
32854576 AGGCATTCCA
* *
32854586 TTCAGAGTTTGCCACAAAGGCTATTCT
1 TTCAGAGTTCGCCACAAAAGCTATTCT
32854613 TTCAGAGTTCG-CACAAAAGCTATTCT
1 TTCAGAGTTCGCCACAAAAGCTATTCT
32854639 T
1 T
32854640 AGCTGTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
TTCAGAGTTCGCCACAAAAGCTATTCT
Found at i:32859534 original size:11 final size:11
Alignment explanation
Indices: 32859518--32859550 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
32859508 TACACATCAA
32859518 TCATAACATTT
1 TCATAACATTT
32859529 TCATAACATTT
1 TCATAACATTT
32859540 TCATAACATTT
1 TCATAACATTT
32859551 AGAATAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (11 bp):
TCATAACATTT
Found at i:32883199 original size:27 final size:28
Alignment explanation
Indices: 32883146--32883203 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
32883136 ATCCTAATAT
32883146 TTAAAATTTATTATAAATAAACAAAACA
1 TTAAAATTTATTATAAATAAACAAAACA
*
32883174 TTAATATTTA-TA-AAATTAAACAAAACA
1 TTAAAATTTATTATAAA-TAAACAAAACA
32883201 TTA
1 TTA
32883204 TGATTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.11
27 16 0.57
28 9 0.32
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (28 bp):
TTAAAATTTATTATAAATAAACAAAACA
Found at i:32883213 original size:27 final size:28
Alignment explanation
Indices: 32883162--32883226 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
32883152 TTTATTATAA
*
32883162 ATAAACAAAACATTAATATTTATAA-A-
1 ATAAACAAAACATTAATATTAATAAGAG
32883188 ATTAAACAAAACATT-ATGATTAATAAGAG
1 A-TAAACAAAACATTAAT-ATTAATAAGAG
32883217 ATAAACAAAA
1 ATAAACAAAA
32883227 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 3 0.09
27 20 0.59
28 10 0.29
29 1 0.03
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (28 bp):
ATAAACAAAACATTAATATTAATAAGAG
Found at i:32884769 original size:44 final size:43
Alignment explanation
Indices: 32884573--32884762 Score: 143
Period size: 44 Copynumber: 4.4 Consensus size: 43
32884563 ATGCGATCTA
* ** *
32884573 CTCTACTGCAACTTCAGAGGGATAAGATCTACTATTTTAATACG
1 CTCTACTGCAACTTCAGAGAGATAAGATCT-GGATTTTAATCCG
* * * * ** **
32884617 CTCCACTGCAACTTTAGGGAGATAAGAT-TGGCTTCTTTTGTCTT
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGG-AT-TTTAATCCG
* *** *
32884661 CTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCGATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTAATCCG
* * *
32884702 CTCTACTACAACTGCAAAGAGATAAGATCTGTGATTTTAATCCG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTTAATCCG
32884746 CTCTACTGCAACTTCAG
1 CTCTACTGCAACTTCAG
32884763 GAAGATAGGA
Statistics
Matches: 109, Mismatches: 31, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
41 27 0.25
42 3 0.03
43 4 0.04
44 75 0.69
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTAATCCG
Found at i:32884782 original size:129 final size:128
Alignment explanation
Indices: 32884528--32884782 Score: 332
Period size: 129 Copynumber: 2.0 Consensus size: 128
32884518 GCTATATTTG
* * * * * * *
32884528 GTCTGCTCCACTACAACTCCGTGAGATAAGATTGGATGCGATCTACTCTACTGCAACTTCAGAGG
1 GTCTGCTCCACTACAACTCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAGA
* *
32884593 GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTTAGGGAGATAAGATTGGCTTCTTTT
66 GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTTTT
* * *
32884656 GTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTACAACTGCAAAG
1 GTCTGCTCCACTACAAC-TCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAG
* * * * *
32884721 AGATAAGATCT-GTGATTTTAATCCGCTCTACTGCAACTTCAGGAAGATAGGATTGGTTTCTT
65 AGATAAGATCTACT-ATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTT
32884783 CAGCCTGATT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
128 16 0.15
129 92 0.85
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAGA
GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTTTT
Found at i:32885038 original size:44 final size:45
Alignment explanation
Indices: 32884968--32885059 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
32884958 GAAGTAAAAT
* * * *
32884968 TTGCTATTCTTAGTCTGCCCCACTGCAACTTCAGGGGGATAGGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
* *
32885013 TTGCT-TTCTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
32885057 TTG
1 TTG
32885060 ACGCGATCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 36 0.88
45 5 0.12
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (45 bp):
TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
Found at i:32885152 original size:44 final size:44
Alignment explanation
Indices: 32885065--32885155 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
32885055 ACTTGACGCG
* * *
32885065 ATCCACTCTACTGCAACTTCAGAGACATAGGATCTATTATTTTA
1 ATCCACTCCACTACAACTTCAGAGACATAGGATCTATGATTTTA
* *
32885109 ATCCACTCCACTACAACTTCAGAGAGATAGGAT-TACTGGTTTTA
1 ATCCACTCCACTACAACTTCAGAGACATAGGATCTA-TGATTTTA
32885153 ATC
1 ATC
32885156 TGCTCCGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
ATCCACTCCACTACAACTTCAGAGACATAGGATCTATGATTTTA
Found at i:32885222 original size:44 final size:45
Alignment explanation
Indices: 32885195--32885314 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 45
32885185 CTACCATTTC
* *
32885195 CAACCTATTCCATTACTGACCAGGGAGAT-AGTATTCTCAATCTT
1 CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
* * * *
32885239 CAACCTAATCCACTGCTGACCAGGGAGAT-AGGAATCACAATCTT
1 CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
* * * * *
32885283 CAACCTATTTCACTGCTGTCTAGGGAGATAAG
1 CAACCTAATCCACTACTGACCAGGGAGATAAG
32885315 AATAGTGGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (45 bp):
CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
Found at i:32885399 original size:44 final size:44
Alignment explanation
Indices: 32885351--32885964 Score: 232
Period size: 44 Copynumber: 14.2 Consensus size: 44
32885341 CTCCTGGGGA
* * *
32885351 AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * * *
32885395 AGATAAGATCTGCTA-TTTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGATTTGC-AGTCTTCAACCTACTCCACTACTG-CTTAGGG
* * * * *
32885439 AGATAGGATTCT-CAATCTTCAACCTATTCCAC-AGCTG-TCCAGAG
1 AGATAAGATT-TGCAGTCTTCAACCTACTCCACTA-CTGCT-TAGGG
* * * * * * * * * *
32885483 AGATAGGACTAG-TGGCTTAAATCTGCTTCC-CTACT-CCTGGGG
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTAGGG
** * * *
32885525 AAGATAAGATTCACCA-TCTTCGATCTCCTCCACTACTGCTTAGGG
1 -AGATAAGATT-TGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * *
32885570 AGATAAGATCTGCAATTTTCAACCTACTCCACTACCGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * *
32885614 AGATAAG-TCT--AGTCTTCAACCTATTCCACTGCTG-TCCAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCT-TAGGG
* * * * * ** * *
32885655 AGATAGGGTTTG-TGGCTTAAATATGCTTCC-CTACT-CCTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTAGGG
* * * ** *
32885697 AAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * *
32885742 AGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* *
32885786 AGATAAG----GCTAGTCTTCAACCTATTCCACTACTG-TGCAGGG
1 AGATAAGATTTGC-AGTCTTCAACCTACTCCACTACTGCT-TAGGG
* * * * * * *
32885827 AGATAGGGTTTGTAG-CTTAAATCTACTTCC-CTACT-CCTACGGA
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTA-GGG
* ** * ** *
32885870 AGATAAGATTCGTTGTCTTCGATTTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * * * * *
32885914 AGATAATATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
32885958 AGATAAG
1 AGATAAG
32885965 GTCTACAATA
Statistics
Matches: 417, Mismatches: 115, Indels: 76
0.69 0.19 0.12
Matches are distributed among these distances:
40 4 0.01
41 60 0.14
42 9 0.02
43 79 0.19
44 248 0.59
45 17 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
Found at i:32885686 original size:347 final size:346
Alignment explanation
Indices: 32885277--32886009 Score: 999
Period size: 347 Copynumber: 2.1 Consensus size: 346
32885267 TAGGAATCAC
* * * *
32885277 AATCTTCAACCTATTTCACTGCTGTCTAGGGAGATAAGAATAGTGGCTTAAATCTGCTTCCCTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
* * *
32885342 TCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
66 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
32885407 CTATTTTCAACCTATTCCACTGCTGAC-CAGGGAGAT-AGGATTCTCAATCTTCAACCTATTCCA
131 CAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATAAGG---CT-AATCTTCAACCTATTCCA
* * **
32885470 C-AGCTGTCCAGAGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
191 CTA-CTGTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGA
32885534 TTCACCATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTC
255 TTCACCATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTC
* *
32885599 CACTACCGCTTAGGGAGATAA-GTCT-
320 CACTACCGCTCAAGGAGATAAGGTCTA
* ** *
32885624 AGTCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGGTTTGTGGCTTAAATATGCTTCCCTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
* *
32885689 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
* *
32885754 CAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTCTTCAACCTATTCCACTACT
131 CAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAATCTTCAACCTATTCCACTACT
* * ** * ***
32885819 GTGCAGGGAGATAGGGTTTGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCGTT
196 GTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCACC
* * * * *
32885884 GTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTACTCCACTAC
261 ATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTAC
*
32885949 TGCTCAAGGAGATAAGGTCTA
326 CGCTCAAGGAGATAAGGTCTA
* * *
32885970 CAATATTCAACCTATTCCACTGCTATCCATGGAGATAGGA
1 -AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
32886010 CCAGTAACTT
Statistics
Matches: 337, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
344 145 0.43
345 7 0.02
346 1 0.00
347 181 0.54
348 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (346 bp):
AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
CAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAATCTTCAACCTATTCCACTACT
GTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCACC
ATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTAC
CGCTCAAGGAGATAAGGTCTA
Found at i:32885730 original size:172 final size:173
Alignment explanation
Indices: 32885216--32886009 Score: 1006
Period size: 172 Copynumber: 4.6 Consensus size: 173
32885206 ATTACTGACC
* * * * *
32885216 AGGGAGAT-AGTATTCT-CAATCTTCAACCTAATCCACTGCTGAC-CAGGGAGATAGGAATCACA
1 AGGGAGATAAG-A-TCTGCAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATA--AGTCTCA
* * * *
32885278 ATCTTCAACCTATTTCACTGCTGTCTAGGGAGATAAGAATAGTGGCTTAAATCTGCTTCCCTACT
61 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACT
* * *
32885343 CCTGGGGAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTT
126 CCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
32885391 AGGGAGATAAGATCTGCTATTTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCTCAAT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATA--AGTCTCAAT
* * *
32885455 CTTCAACCTATTCCACAGCTGTCCAGAGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCC
63 CTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCC
* * * *
32885520 TGGGGAAGATAAGATTCACCATCTTCGATCTCCTCCACTACTGCTT
128 TAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
32885566 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACCGCTTAGGGAGATAAGTCT-AGTCTT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
* * *
32885630 CAACCTATTCCACTGCTGTCCAGGGAGATAGGGTTTGTGGCTTAAATATGCTTCCCTACTCCTAG
66 CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
* *
32885695 GGAAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTT
131 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
32885738 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCT-AGTCTT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
* * * * * * *
32885802 CAACCTATTCCACTACTGTGCAGGGAGATAGGGTTTGTAGCTTAAATCTACTTCCCTACTCCTAC
66 CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
** *
32885867 GGAAGATAAGATTCGTTGTCTTCGATTTGCTCCACTACTGCTT
131 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
32885910 AGGGAGATAATATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGGAGATAAGGTCTACAATA
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAA-GTCT-CAATC
* *
32885975 TTCAACCTATTCCACTGCTATCCATGGAGATAGGA
64 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
32886010 CCAGTAACTT
Statistics
Matches: 556, Mismatches: 57, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
172 312 0.56
173 7 0.01
174 4 0.01
175 231 0.42
176 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
Found at i:32885979 original size:44 final size:44
Alignment explanation
Indices: 32885896--32885990 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
32885886 CTTCGATTTG
* * * ** *
32885896 CTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
*
32885940 CTCCACTACTGCTCAAGGAGATAAGGTCTACAATATTCAACCTA
1 CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
*
32885984 TTCCACT
1 CTCCACT
32885991 GCTATCCATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
Found at i:32886134 original size:88 final size:88
Alignment explanation
Indices: 32886034--32886280 Score: 343
Period size: 88 Copynumber: 2.8 Consensus size: 88
32886024 CTGCTTTGTC
* *
32886034 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACTTGCTCCACTGTAAGCCAGGGAGGCAAGGC
1 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
* *
32886099 TGGTGTCTTCGATCTGCTTCGCT
66 TGGTGTCTTCAATCTGATTCGCT
* ** * * * * *
32886122 GTCGGTGTAGGAAGGCAAGATCTGCTATCTTCAACCTGATCCACTGCAACCCAGGGGGGCAAGGC
1 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
32886187 TGGTGTCTTCAATCTGATTCGCT
66 TGGTGTCTTCAATCTGATTCGCT
* * *
32886210 GTCAGTACAGGAAGGAAAGAT-TTTCTATTTTCAACCTGCTCCACTACAAGCCAGGGAGGCAAGG
1 GTCAGTACAGGAAGGCAAGATCTGT-TATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGG
32886274 CTGGTGT
65 CTGGTGT
32886281 TTGCATGAAT
Statistics
Matches: 135, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
87 1 0.01
88 134 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (88 bp):
GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
TGGTGTCTTCAATCTGATTCGCT
Found at i:32887323 original size:42 final size:42
Alignment explanation
Indices: 32887256--32887335 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
32887246 GTATAACAAG
*
32887256 ATCACCACATGCCCCAATCTAATCAAAATTTGAACCGCTCTA
1 ATCACCACATACCCCAATCTAATCAAAATTTGAACCGCTCTA
* * * * *
32887298 ATCACCTCATACCCCATTCTGATCAATATTTGAGCCGC
1 ATCACCACATACCCCAATCTAATCAAAATTTGAACCGC
32887336 CCTTTTCCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.09, T:0.26
Consensus pattern (42 bp):
ATCACCACATACCCCAATCTAATCAAAATTTGAACCGCTCTA
Found at i:32888426 original size:16 final size:17
Alignment explanation
Indices: 32888407--32888439 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32888397 TTGATTTTAA
32888407 TTATTTT-TTTCTTTTT
1 TTATTTTATTTCTTTTT
32888423 TTATTTTGATTTCTTTT
1 TTATTTT-ATTTCTTTT
32888440 ATTTTGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (17 bp):
TTATTTTATTTCTTTTT
Found at i:32888439 original size:15 final size:14
Alignment explanation
Indices: 32888388--32888447 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
32888378 CATTTCATCA
32888388 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
* **
32888402 TTTAATTATTTTTTTCT
1 TTT--TT-TATTTTGAT
32888419 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
32888433 TTCTTTTATTTTGAT
1 TT-TTTTATTTTGAT
32888448 GATTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 11 0.31
15 14 0.39
16 2 0.06
17 9 0.25
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTGAT
Found at i:32888454 original size:31 final size:31
Alignment explanation
Indices: 32888384--32888455 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
32888374 TTTTCATTTC
*
32888384 ATCATTTTTTATTTTGATTTTAATTATTTTT
1 ATCATTTTTTATTTTGATTTTAATTATTTTG
* * *
32888415 TTCTTTTTTTATTTTGATTTCT-TTTATTTTG
1 ATCATTTTTTATTTTGATTT-TAATTATTTTG
*
32888446 ATGATTTTTT
1 ATCATTTTTT
32888456 TATTGAATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (31 bp):
ATCATTTTTTATTTTGATTTTAATTATTTTG
Found at i:32892892 original size:24 final size:23
Alignment explanation
Indices: 32892865--32892917 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
32892855 ATATAGATGA
*
32892865 TGAAACATATAAA-GATATAGAGTT
1 TGAAACATAAAAAGGATA-A-AGTT
32892889 TGAAA-ATAAAAAGGATAAAGTT
1 TGAAACATAAAAAGGATAAAGTT
*
32892911 TAAAACA
1 TGAAACA
32892918 ATGTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 8 0.32
24 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.25
Consensus pattern (23 bp):
TGAAACATAAAAAGGATAAAGTT
Found at i:32893077 original size:27 final size:28
Alignment explanation
Indices: 32893020--32893077 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
32893010 ATCCTAATAT
32893020 TTAAAATTTATTATAAATAAACAAAAAA
1 TTAAAATTTATTATAAATAAACAAAAAA
* *
32893048 TTAATATTTA-TA-AAATTAAACAAAACA
1 TTAAAATTTATTATAAA-TAAACAAAAAA
32893075 TTA
1 TTA
32893078 TGATTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 15 0.56
28 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
TTAAAATTTATTATAAATAAACAAAAAA
Found at i:32893087 original size:27 final size:28
Alignment explanation
Indices: 32893036--32893102 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
32893026 TTTATTATAA
*
32893036 ATAAACAAAAAATTAATATTTATAA-A-
1 ATAAACAAAAAATTAATATTAATAAGAG
*
32893062 ATTAAACAAAACATT-ATGATTAATAAGAG
1 A-TAAACAAAAAATTAAT-ATTAATAAGAG
32893091 ATAAACAAAAAA
1 ATAAACAAAAAA
32893103 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 19 0.56
28 11 0.32
29 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.25
Consensus pattern (28 bp):
ATAAACAAAAAATTAATATTAATAAGAG
Found at i:32894657 original size:44 final size:43
Alignment explanation
Indices: 32894465--32894657 Score: 142
Period size: 44 Copynumber: 4.5 Consensus size: 43
32894455 AATCTACTCT
* *
32894465 ACTGCAACTTC-AGAAGGATAAGATCTACGATTTTAATCCGCTCC
1 ACTGCAACTTCAAGGA-GATAAGATCT-GGATTTTAATCCGCTCC
* * * * ** **
32894509 ACTGTAACTTCATGGAGATAGGAT-TGGCTTCTTTTGTCTTCTCC
1 ACTGCAACTTCAAGGAGATAAGATCTGG-AT-TTTAATCCGCTCC
* *** * **
32894553 ACTGCAACTTCAAAGAGATAAGA-CTGGA-TGCGATCTGCTTT
1 ACTGCAACTTCAAGGAGATAAGATCTGGATTTTAATCCGCTCC
*
32894594 ACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCCGCTCC
1 ACTGCAACTTCAAGGAGATAAGATCTG-GATTTTAATCCGCTCC
*
32894638 ACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAAGGAGATA
32894658 GGATTGGTTT
Statistics
Matches: 112, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
41 29 0.26
42 4 0.04
43 4 0.04
44 73 0.65
45 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
ACTGCAACTTCAAGGAGATAAGATCTGGATTTTAATCCGCTCC
Found at i:32894670 original size:129 final size:128
Alignment explanation
Indices: 32894416--32894670 Score: 368
Period size: 129 Copynumber: 2.0 Consensus size: 128
32894406 GCTATATTTG
**
32894416 GTCTGCTCCACTACAACTCAGTGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
1 GTCTGCTCCACTACAACTCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
* *
32894481 GATAAGATCTACGATTTTAATCCGCTCCACTGTAACTTCATGGAGATAGGATTGGCTTCTTTT
66 GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTTT
* * * * * *
32894544 GTCTTCTCCACTGCAACTTCAAAGAGATAAGACTGGATGCGATCTGCTTTACTGCAACTTCA-AA
1 GTCTGCTCCACTACAAC-TCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAA
** *
32894608 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT
65 G-GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTT
32894671 CAATCTGATT
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 18 0.16
129 94 0.84
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTTT
Found at i:32894727 original size:50 final size:49
Alignment explanation
Indices: 32894668--32894824 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 49
32894658 GGATTGGTTT
* * *
32894668 CTTCAATCTGATTAACTGCAATGTCAAGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTG-TTAACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
* * **** * *
32894718 CTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTGTT-AACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
* *
32894768 CTTCAATCTTTTTAATTGCAATGTC-GGGAAAGCAAGATTCACTGTTGTAG
1 CTTCAATC-TGTTAACTGCAATGTCAGGG-AAGCAAGATTCACTGTTGTAG
32894818 CTTCAAT
1 CTTCAAT
32894825 TTGTGCGCTG
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
49 5 0.06
50 75 0.90
51 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
CTTCAATCTGTTAACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
Found at i:32897156 original size:5 final size:5
Alignment explanation
Indices: 32897146--32897195 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
32897136 AAACTATTAA
32897146 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
32897196 AACATTCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:32905306 original size:20 final size:22
Alignment explanation
Indices: 32905260--32905307 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
32905250 TGCTAAAGAA
*
32905260 GTTAAAGAAGTTATTTCTAGTCT
1 GTTAAAGAAGTTA-TGCTAGTCT
32905283 GTTAAAGAAGTTA-GCTAG-CT
1 GTTAAAGAAGTTATGCTAGTCT
32905303 GTTAA
1 GTTAA
32905308 GTAAAGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
23 13 0.54
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (22 bp):
GTTAAAGAAGTTATGCTAGTCT
Found at i:32910445 original size:9 final size:9
Alignment explanation
Indices: 32910405--32910457 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
32910395 AAGTTTTGAA
32910405 TATTAATA-
1 TATTAATAT
32910413 T-TTATATAT
1 TATTA-ATAT
32910422 TA-TAAT-T
1 TATTAATAT
*
32910429 TAAATAATAT
1 T-ATTAATAT
32910439 TATTAATAT
1 TATTAATAT
32910448 TATTAATAT
1 TATTAATAT
32910457 T
1 T
32910458 TTCTACATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 24 0.63
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTAATAT
Found at i:32914719 original size:21 final size:20
Alignment explanation
Indices: 32914681--32914720 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
32914671 ATATTGTAGT
*
32914681 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
32914701 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
32914721 TTTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:32915549 original size:100 final size:101
Alignment explanation
Indices: 32915419--32915730 Score: 427
Period size: 100 Copynumber: 3.1 Consensus size: 101
32915409 GATTCGCCAT
* *
32915419 CTTCAATCTATTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGA-TTCAATCTGTTCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGT-GACTTCAATCTGTTCC
* * *
32915483 ACTAGACCGCCAAGGAAGTAAGATTTG-TAGTTGTGG
65 CCTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
* * *
32915519 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTGACTTCAACCTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
*
32915584 CTACG-CCACCAGGGAAGTAAGATTCGCT-GTTGTGG
66 CTA-GACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
* * * * *
32915619 CGTCAATCTCTTTAATTGCAATGTCGGGGAATCAAGATTCGTCGTCGTGACTTCAATTTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
* *
32915684 CTACACCGCCAGGGAAGTAAGATTCGCCA-TTGTGG
66 CTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
32915719 CTTCAATCTATT
1 CTTCAATCTATT
32915731 CCACTGTAAT
Statistics
Matches: 185, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
99 2 0.01
100 181 0.98
101 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (101 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
CTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
Found at i:32915573 original size:50 final size:50
Alignment explanation
Indices: 32915419--32915675 Score: 148
Period size: 50 Copynumber: 5.1 Consensus size: 50
32915409 GATTCGCCAT
* *
32915419 CTTCAATCTATTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGT-GA
* ** ** * * * * * * *
32915470 -TTCAATCTGTTCCACTAG-ACCGCCAAGGAAGTAAGATTTGTAGTTGTGG
1 CTTCAATCTATTTAACT-GCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
* *
32915519 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
* * *** * * * * *
32915569 CTTCAACCTGTTCCCCTACGCCA--CCAGGGAAGTAAGATTCG-CTGTTGTGG
1 CTTCAATCTATTTAACT--GCAATGTCAGGGAAATAAGATTCGTC-GTCGTGA
* * * *
32915619 CGTCAATCTCTTTAATTGCAATGTC-GGGGAATCAAGATTCGTCGTCGTGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAAT-AAGATTCGTCGTCGTGA
32915669 CTTCAAT
1 CTTCAAT
32915676 TTGTTCCCCT
Statistics
Matches: 142, Mismatches: 54, Indels: 21
0.65 0.25 0.10
Matches are distributed among these distances:
48 3 0.02
49 8 0.06
50 126 0.89
51 2 0.01
52 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
Found at i:32919968 original size:15 final size:14
Alignment explanation
Indices: 32919956--32919994 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
32919946 CTATTTTTAC
32919956 TTTTTCCATTTTTCA
1 TTTTT-CATTTTTCA
32919971 TTTTTCA-TTTTCA
1 TTTTTCATTTTTCA
32919984 -TTTTCATTTTT
1 TTTTTCATTTTT
32919995 TTACATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 2 0.09
15 5 0.22
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:32919994 original size:7 final size:7
Alignment explanation
Indices: 32919956--32919994 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
32919946 CTATTTTTAC
32919956 TTTTTCCA
1 TTTTT-CA
32919964 TTTTTCA
1 TTTTTCA
32919971 TTTTTCA
1 TTTTTCA
32919978 -TTTTCA
1 TTTTTCA
32919984 -TTTTCA
1 TTTTTCA
32919990 TTTTT
1 TTTTT
32919995 TTACATCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:32920535 original size:10 final size:10
Alignment explanation
Indices: 32920490--32920580 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 10
32920480 TTGGTAGAAG
*
32920490 TTTTTGTTTC
1 TTTTTGTTTT
32920500 TTTTTGTTTTT
1 TTTTTG-TTTT
*
32920511 ATTTTTATTTATT
1 -TTTTT-GTT-TT
32920524 TTTTTGTTTT
1 TTTTTGTTTT
* * *
32920534 TTGTTCTTCT
1 TTTTTGTTTT
32920544 TTTTTGTTCCTT
1 TTTTTGTT--TT
32920556 TTTTT-TTGTT
1 TTTTTGTT-TT
*
32920566 CTTTT-TTTT
1 TTTTTGTTTT
32920575 TTTTTG
1 TTTTTG
32920581 GAATTTGCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
9 6 0.10
10 29 0.47
11 7 0.11
12 18 0.29
13 2 0.03
ACGTcount: A:0.03, C:0.07, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:32920546 original size:13 final size:12
Alignment explanation
Indices: 32920530--32920574 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 12
32920520 TATTTTTTTG
32920530 TTTTTTGTTCTT
1 TTTTTTGTTCTT
32920542 CTTTTTTGTTCCTTT
1 -TTTTTTGTT-C-TT
32920557 TTTTTTGTTCTT
1 TTTTTTGTTCTT
32920569 TTTTTT
1 TTTTTT
32920575 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.27
13 10 0.33
14 10 0.33
15 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (12 bp):
TTTTTTGTTCTT
Found at i:32920575 original size:13 final size:13
Alignment explanation
Indices: 32920490--32920575 Score: 77
Period size: 14 Copynumber: 6.4 Consensus size: 13
32920480 TTGGTAGAAG
32920490 TTTTTGTTTCTTTT
1 TTTTTG-TTCTTTT
* *
32920504 TGTTT-TTATTTT
1 TTTTTGTTCTTTT
*
32920516 TATTTAT-TTTTTTGT
1 T-TTT-TGTTCTTT-T
*
32920531 TTTTTGTTCTTCT
1 TTTTTGTTCTTTT
32920544 TTTTTGTTCCTTTT
1 TTTTTGTT-CTTTT
32920558 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
32920571 TTTTT
1 TTTTT
32920576 TTTTGGAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 7 0.12
13 22 0.37
14 29 0.48
15 2 0.03
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:32924847 original size:29 final size:29
Alignment explanation
Indices: 32924772--32924848 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
32924762 ATATATGTAT
* * *
32924772 AAAATATATACATGTATTTATAAAGTCTA
1 AAAAAATATGCATGTATATATAAAGTCTA
* *
32924801 AAAAAATATAGGCATATATAT-TAAA-TTTA
1 AAAAAATAT--GCATGTATATATAAAGTCTA
32924830 AAAAAATATGCATGTATAT
1 AAAAAATATGCATGTATAT
32924849 GTATAGAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 9 0.22
29 20 0.50
30 4 0.10
31 7 0.17
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (29 bp):
AAAAAATATGCATGTATATATAAAGTCTA
Found at i:32929659 original size:19 final size:18
Alignment explanation
Indices: 32929629--32929666 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
32929619 TGGTTTTCTC
*
32929629 AAAATGGAAATAGAAATG
1 AAAATGGAAATAAAAATG
32929647 AAAATGAGAAATAAAAATG
1 AAAATG-GAAATAAAAATG
32929666 A
1 A
32929667 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:32930373 original size:22 final size:22
Alignment explanation
Indices: 32930345--32930390 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
32930335 AAGATCATTT
32930345 GGGTGAAAGCCAAAAACATCAA
1 GGGTGAAAGCCAAAAACATCAA
32930367 GGGTGAAAGCCAAAAACATCAA
1 GGGTGAAAGCCAAAAACATCAA
32930389 GG
1 GG
32930391 ATCTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.26, T:0.09
Consensus pattern (22 bp):
GGGTGAAAGCCAAAAACATCAA
Found at i:32931927 original size:12 final size:12
Alignment explanation
Indices: 32931910--32931934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32931900 GTCGAATCTA
32931910 TTTTTGTATTTG
1 TTTTTGTATTTG
32931922 TTTTTGTATTTG
1 TTTTTGTATTTG
32931934 T
1 T
32931935 ATCTGTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTTGTATTTG
Found at i:32942742 original size:30 final size:31
Alignment explanation
Indices: 32942705--32942782 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
32942695 TGACGATTTA
32942705 AAAAAAAACCATTT-AACAGTCCAATGACTTT
1 AAAAAAAA-CATTTAAACAGTCCAATGACTTT
* * *
32942736 AAAAAAAACTTTTAAATAGTTCAATGAC-TT
1 AAAAAAAACATTTAAACAGTCCAATGACTTT
* *
32942766 AAATGAAAACTTTTAAA
1 AAA-AAAAACATTTAAA
32942783 TAGTTCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.22
31 32 0.78
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAAACATTTAAACAGTCCAATGACTTT
Found at i:32942761 original size:31 final size:31
Alignment explanation
Indices: 32942726--32942790 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
32942716 TTTAACAGTC
32942726 CAATGACTTTAAA-AAAAACTTTTAAATAGTT
1 CAATGAC-TTAAATAAAAACTTTTAAATAGTT
*
32942757 CAATGACTTAAATGAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
32942788 CAA
1 CAA
32942791 AACTAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:32942808 original size:29 final size:31
Alignment explanation
Indices: 32942740--32942798 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
32942730 GACTTTAAAA
*
32942740 AAAACTTTTAAATAGTTCAATGACTTAAATG
1 AAAACTTTTAAATAGTTCAATAACTTAAATG
32942771 AAAACTTTTAAATAGTTCAA-AAC-TAAAT
1 AAAACTTTTAAATAGTTCAATAACTTAAAT
32942799 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 2 0.07
31 20 0.74
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (31 bp):
AAAACTTTTAAATAGTTCAATAACTTAAATG
Found at i:32944308 original size:20 final size:20
Alignment explanation
Indices: 32944268--32944311 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32944258 TTACATAATA
*
32944268 TAATAATATATTTAAATTAT
1 TAATAATATATTTAAACTAT
32944288 TAATACATATATTT-AACTAT
1 TAATA-ATATATTTAAACTAT
32944308 TAAT
1 TAAT
32944312 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAATATATTTAAACTAT
Found at i:32944815 original size:43 final size:43
Alignment explanation
Indices: 32944762--32944866 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
32944752 AAAGTGGAGA
32944762 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
1 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
32944805 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
1 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
32944848 TTATCTATTTATTATCAAA
1 TTAT-T-TTTATT-TCAAA
32944867 TTGATGTGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
43 47 0.80
44 1 0.02
45 6 0.10
46 5 0.08
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (43 bp):
TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
Found at i:32963830 original size:24 final size:24
Alignment explanation
Indices: 32963803--32963870 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
32963793 AAATTTGTAT
* * *
32963803 TTGCATTTGTATTTGTATCTAAAA
1 TTGCATCTGTATCTGAATCTAAAA
*
32963827 TTGCATCTGTCTCTGAATCTAAAA
1 TTGCATCTGTATCTGAATCTAAAA
* * *
32963851 TTGTATCTATATCTGTATCT
1 TTGCATCTGTATCTGAATCT
32963871 GATCTGTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (24 bp):
TTGCATCTGTATCTGAATCTAAAA
Found at i:32966038 original size:5 final size:5
Alignment explanation
Indices: 32966030--32966059 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
32966020 TATATTATTA
32966030 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
32966060 AGCATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:32976255 original size:34 final size:34
Alignment explanation
Indices: 32976217--32976281 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
32976207 TAATGCTTAC
* *
32976217 TGATACTGGAATA-GGCTCAGGCCTAAACTGATAT
1 TGATACT-GAAAAGGGCTCAGGCCCAAACTGATAT
*
32976251 TGATACTGAAAAGGGCTTAGGCCCAAACTGA
1 TGATACTGAAAAGGGCTCAGGCCCAAACTGA
32976282 GATTATTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (34 bp):
TGATACTGAAAAGGGCTCAGGCCCAAACTGATAT
Found at i:32979162 original size:18 final size:20
Alignment explanation
Indices: 32979138--32979187 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
32979128 TGAATGCAAT
32979138 TAAATATTATTAT-ATTTGA
1 TAAATATTATTATAATTTGA
*
32979157 -AAATATAAATT-TAATTTGA
1 TAAATAT-TATTATAATTTGA
32979176 TAAATATTATTA
1 TAAATATTATTA
32979188 ATATGTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TAAATATTATTATAATTTGA
Found at i:32983073 original size:21 final size:20
Alignment explanation
Indices: 32983049--32983115 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
32983039 TACATGGAAT
*
32983049 TAAAAGTTTAAAACTCAAATC
1 TAAAA-TTTAAAACTCAAACC
* *
32983070 TAAAATCCTAAAA-TTAAACC
1 TAAAAT-TTAAAACTCAAACC
*
32983090 TGAAATTTAAAACTCTAAACC
1 TAAAATTTAAAACTC-AAACC
32983111 TAAAA
1 TAAAA
32983116 GTCAAAAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 5 0.14
20 12 0.33
21 19 0.53
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.27
Consensus pattern (20 bp):
TAAAATTTAAAACTCAAACC
Found at i:32992283 original size:60 final size:60
Alignment explanation
Indices: 32992190--32992314 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
32992180 TGAGATATTT
32992190 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
32992250 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
32992310 TGGAT
1 TGGAT
32992315 GTATCTAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (60 bp):
TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
Found at i:33005138 original size:18 final size:20
Alignment explanation
Indices: 33005099--33005138 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
33005089 TTAACTTTAA
*
33005099 ATGTCAACACGGTCTGGGCT
1 ATGTCAACACGGCCTGGGCT
33005119 ATGTC-ACACGGCCT-GGCT
1 ATGTCAACACGGCCTGGGCT
33005137 AT
1 AT
33005139 ACAGCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.25
Consensus pattern (20 bp):
ATGTCAACACGGCCTGGGCT
Found at i:33015764 original size:7 final size:7
Alignment explanation
Indices: 33015752--33015796 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
33015742 TTTGTATCAA
33015752 AAACCCT
1 AAACCCT
33015759 AAACCCT
1 AAACCCT
33015766 AAACCCT
1 AAACCCT
33015773 AAACCCT
1 AAACCCT
33015780 AAACCCT
1 AAACCCT
*
33015787 AAACCAT
1 AAACCCT
33015794 AAA
1 AAA
33015797 TGAATTACGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:33015940 original size:6 final size:6
Alignment explanation
Indices: 33015926--33015973 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
33015916 GGTTTTCTTA
* * *
33015926 AAATGG AAATAG AAATGG AAATGG AAATGA AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
33015974 ATTCTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:33018319 original size:12 final size:12
Alignment explanation
Indices: 33018302--33018327 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33018292 AGGTAGAATC
33018302 TGTTTTTGTATT
1 TGTTTTTGTATT
33018314 TGTTTTTGTATT
1 TGTTTTTGTATT
33018326 TG
1 TG
33018328 CATCTGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (12 bp):
TGTTTTTGTATT
Found at i:33019839 original size:18 final size:18
Alignment explanation
Indices: 33019785--33019840 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
33019775 AATGAGTTAG
*
33019785 TTCATTTTTTTAATCTAT
1 TTCATTTTTTTTATCTAT
* ** *
33019803 TTTAGTTCATTTTA-GTAT
1 TTCA-TTTTTTTTATCTAT
33019821 TTCATTTTTTTTATCTAT
1 TTCATTTTTTTTATCTAT
33019839 TT
1 TT
33019841 TCTATTGTTC
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
17 7 0.26
18 14 0.52
19 6 0.22
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.68
Consensus pattern (18 bp):
TTCATTTTTTTTATCTAT
Found at i:33030897 original size:21 final size:19
Alignment explanation
Indices: 33030873--33030915 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
33030863 GTCCTAATGC
*
33030873 AATATTAAAAATGCTAACTAA
1 AATATCAAAAATGC-AAC-AA
*
33030894 AATATCCAAAATGCAACAA
1 AATATCAAAAATGCAACAA
33030913 AAT
1 AAT
33030916 GTACGTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (19 bp):
AATATCAAAAATGCAACAA
Found at i:33033364 original size:6 final size:6
Alignment explanation
Indices: 33033341--33033432 Score: 64
Period size: 6 Copynumber: 15.5 Consensus size: 6
33033331 TGTCTACATT
* * * * **
33033341 TGTATC TGAATT TGTATC TGTATC TGTATT TGTATT TAAAAT- TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC T-GTATC TGTATC
* * *
33033389 TGTATC TGAATC TGAAAT- TGTATC TATATC TGTATC TG-ATC TGT
1 TGTATC TGTATC TG-TATC TGTATC TGTATC TGTATC TGTATC TGT
33033433 TTGTATAGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
5 9 0.13
6 54 0.79
7 5 0.07
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (6 bp):
TGTATC
Found at i:33033372 original size:30 final size:30
Alignment explanation
Indices: 33033338--33033396 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
33033328 ATGTGTCTAC
* *
33033338 ATTTGTATCTGAATTTGTATCTGTATCTGT
1 ATTTGTATCTAAAATTGTATCTGTATCTGT
*
33033368 ATTTGTATTTAAAATTGTATCTGTATCTG
1 ATTTGTATCTAAAATTGTATCTGTATCTG
33033397 AATCTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (30 bp):
ATTTGTATCTAAAATTGTATCTGTATCTGT
Found at i:33033425 original size:24 final size:24
Alignment explanation
Indices: 33033359--33033427 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
33033349 AATTTGTATC
* * *
33033359 TGTATCTGTATTTGTATTTAAAAT
1 TGTATCTGTATCTGTATCTGAAAT
*
33033383 TGTATCTGTATCTGAATCTGAAAT
1 TGTATCTGTATCTGTATCTGAAAT
*
33033407 TGTATCTATATCTGTATCTGA
1 TGTATCTGTATCTGTATCTGA
33033428 TCTGTTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (24 bp):
TGTATCTGTATCTGTATCTGAAAT
Found at i:33034116 original size:7 final size:7
Alignment explanation
Indices: 33034099--33034150 Score: 70
Period size: 7 Copynumber: 7.1 Consensus size: 7
33034089 ATATATAAAC
33034099 TATTAATA
1 TATT-ATA
33034107 TATTATA
1 TATTATA
33034114 TATTATA
1 TATTATA
33034121 TATTATA
1 TATTATA
33034128 TATTATA
1 TATTATA
33034135 T-TATATTA
1 TAT-TA-TA
33034143 TATTATA
1 TATTATA
33034150 T
1 T
33034151 GGTAGTAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.02
7 30 0.73
8 9 0.22
9 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Done.